Extended Data Fig. 4: Downstream effects of m6A are context dependent.
a, The number and fraction of m6A-QTLs in chromatin related genomic regions (using the union of promoter and enhancer regions annotated by ChromHMM in GM12878 cell line), and in chromatin related eQTLs (eQTLs with nominal P-value < 0.05 and also in promoter and enhancer regions). b, High correlations of effect sizes between molecular QTLs along the cascade from transcription to translation. Correlation is computed using linear regression, in which fitted lines and 95% confidence intervals are shown in blue lines and shades. c, Log2 fold change of translation efficiency of m6A methylated transcripts in METTL3 knockdown vs. controls. d, Log2 fold changes of translation efficiency upon YTHDF1 (m6A reader protein) knockdown. Transcripts harboring YTHDF1-bound m6A peaks are labeled in yellow and non-targets in blue.
